Rroxscaffold_4G00313030

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000623
Physical Location & Seq
Reverse (-)
36227218 .. 36229250
2033 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00313030.1

Sequence Viewer

Length: 360 bp
ATGGCGATGAATTCTAGCCACTTTCAGGGAAACCTTTCTTTGATATGGATCATACTCACAAAATCCCATGTCAAACCCATTTATGAAATGGAGATCCCAGCCAAACTTGGTCCAGTATTACCCGCTGGTGCTTCAGTCCCCATGGTTCTCAGCTTTGGGGACAAGAGCTGGGAGATGACATATAATGAAATAAAACGTCTTAAATTAGTGGATCGACAATCTTGGAGAGCATTCGTGGATGACAACAGTCTGAAGGCTGGAGATGGATGTATTTTTGAACTAACGAGGTGTGACAGTACAAAAGTAAGTATTCAAGGTCCAAAATCCAAATCCTCAGAGGTGACATCCCAGCTGAGCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
B3

Protein Analysis

119

Amino Acids

13.22

Weight (kDa)

8.6

Isoelectric Point (pI)

27.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 52 - 103 5.2e-08 B3 DNA binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000623)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g35581 FvH4_6g35581 FvH4_6g35582 FvH4_7g07710 FvH4_7g07720
malus_domestica MD02G1233300.v1.1 MD07G1080300.v1.1
prunus_persica Prupe.2G100300_v2.0.a1 Prupe.2G100300_v2.0.a1 Prupe.2G100300_v2.0.a1 Prupe.2G100300_v2.0.a1 Prupe.2G104300_v2.0.a1 Prupe.2G104700_v2.0.a1 Prupe.2G104700_v2.0.a1 Prupe.2G104700_v2.0.a1
pyrus_communis pycom02g20150 pycom07g06390
rosa_chinensis RchiOBHm_Chr1g0342371 RchiOBHm_Chr1g0342381 RchiOBHm_Chr1g0342401 RchiOBHm_Chr1g0342491 RchiOBHm_Chr1g0342511 RchiOBHm_Chr2g0147401 RchiOBHm_Chr2g0147411
rosa_laevigata RLG00000020253 RLG00000020259 RLG00000029157 RLG00000029158
rosa_multiflora Rmu_sc0000979.1_g000010 Rmu_sc0001159.1_g000034 Rmu_sc0001159.1_g000035 Rmu_sc0005388.1_g000001 Rmu_sc0009535.1_g000001 Rmu_sc0009535.1_g000003 Rmu_sc0011976.1_g000004 Rmu_sc0011976.1_g000005 Rmu_sc0027133.1_g000002
rosa_roxburghii Rroxscaffold_2G00099550 Rroxscaffold_2G00099560 Rroxscaffold_4G00296180 Rroxscaffold_4G00312990 Rroxscaffold_4G00313010 Rroxscaffold_4G00313030 Rroxscaffold_4G00313060
rosa_rugosa Rorug01G0150600.1 Rorug01G0150700.1 Rorug01G0150800.1 Rorug01G0150900.1 Rorug01G0151000.1 Rorug01G0151100.1 Rorug01G0151200.1 Rorug01G0151300.1 Rorug01G0151400.1 Rorug02G0399500 Rorug02G0399600 Rorug02G0399700 Rorug02G0399800 Rorug02G0399800 Rorug02G0399900
rosa_samantha Rh1AG165800 Rh1AG165900 Rh1BG132300 Rh1BG132400 Rh1CG154400 Rh1CG154500 Rh1DG167200 Rh1DG167300 Rh2AG456600 Rh2AG456700 Rh2BG469100 Rh2CG444100 Rh2CG444200 Rh2DG478400 Rh2DG478500
rosa_wichuraiana Rw1G013810 Rw1G013820 Rw1G013860 Rw2G037370 Rw2G037380

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 123
AclWI GGATC 3 cut(s) 56, 88, 219
AcsI RAATTY 1 cut(s) 10
AcuI CTGAAG 2 cut(s) 117, 272
AfaI GTAC 1 cut(s) 298
AfiI CCNNNNNNNGG 1 cut(s) 25
AgsI TTSAA 2 cut(s) 278, 314
AluBI AGCT 4 cut(s) 153, 168, 352, 357
AluI AGCT 4 cut(s) 153, 168, 352, 357
AlwI GGATC 3 cut(s) 56, 88, 219
ApoI RAATTY 1 cut(s) 10
Asp700I GAANNNNTTC 1 cut(s) 34
AspS9I GGNCC 2 cut(s) 110, 317
AsuHPI GGTGA 1 cut(s) 352
AvaII GGWCC 2 cut(s) 110, 317
BccI CCATC 1 cut(s) 257
BfaI CTAG 2 cut(s) 15, 358
BlpI GCTNAGC 1 cut(s) 353
Bme18I GGWCC 2 cut(s) 110, 317
BmgT120I GGNCC 2 cut(s) 110, 317
BoxI GACNNNNGTC 1 cut(s) 246
BpmI CTGGAG 1 cut(s) 279
Bpu1102I GCTNAGC 1 cut(s) 353
BsaBI GATNNNNATC 1 cut(s) 47
BsaJI CCNNGG 1 cut(s) 141
Bsc4I CCNNNNNNNGG 1 cut(s) 25
Bse1I ACTGG 1 cut(s) 113
Bse8I GATNNNNATC 1 cut(s) 47
BseDI CCNNGG 1 cut(s) 141
BseGI GGATG 3 cut(s) 244, 272, 344
BseJI GATNNNNATC 1 cut(s) 47
BseLI CCNNNNNNNGG 1 cut(s) 25
BseMII CTCAG 3 cut(s) 163, 344, 348
BseNI ACTGG 1 cut(s) 113
BseYI CCCAGC 3 cut(s) 97, 168, 348
BslFI GGGAC 2 cut(s) 122, 173
BslI CCNNNNNNNGG 1 cut(s) 25
BsmFI GGGAC 2 cut(s) 122, 173
BsmI GAATGC 1 cut(s) 230
Bsp143I GATC 3 cut(s) 48, 93, 211
Bsp1720I GCTNAGC 1 cut(s) 353
Bsp19I CCATGG 1 cut(s) 141
BspACI CCGC 1 cut(s) 123
BspCNI CTCAG 3 cut(s) 162, 345, 347
BspPI GGATC 3 cut(s) 56, 88, 219
BsrI ACTGG 1 cut(s) 113
BssECI CCNNGG 1 cut(s) 141
BssMI GATC 3 cut(s) 48, 93, 211
BssT1I CCWWGG 1 cut(s) 141
Bst4CI ACNGT 2 cut(s) 248, 296
BstDEI CTNAG 3 cut(s) 149, 334, 353
BstDSI CCRYGG 1 cut(s) 141
BstF5I GGATG 3 cut(s) 244, 272, 344
BstKTI GATC 3 cut(s) 51, 96, 214
BstMBI GATC 3 cut(s) 48, 93, 211
BstPAI GACNNNNGTC 1 cut(s) 246
BstX2I RGATCY 1 cut(s) 93
BstYI RGATCY 1 cut(s) 93
BtgI CCRYGG 1 cut(s) 141
BtgZI GCGATG 1 cut(s) 20
BtsCI GGATG 3 cut(s) 244, 272, 344
Cfr13I GGNCC 2 cut(s) 110, 317
Csp6I GTAC 1 cut(s) 297
CviAII CATG 2 cut(s) 68, 142
CviJI RGCY 7 cut(s) 18, 101, 153, 168, 257, 352, 357
CviKI_1 RGCY 7 cut(s) 18, 101, 153, 168, 257, 352, 357
CviQI GTAC 1 cut(s) 297
DdeI CTNAG 3 cut(s) 149, 334, 353
DpnI GATC 3 cut(s) 50, 95, 213
DpnII GATC 3 cut(s) 48, 93, 211
Eco130I CCWWGG 1 cut(s) 141
Eco47I GGWCC 2 cut(s) 110, 317
Eco57I CTGAAG 2 cut(s) 117, 272
EcoRI GAATTC 1 cut(s) 10
EcoT14I CCWWGG 1 cut(s) 141
ErhI CCWWGG 1 cut(s) 141
FaeI CATG 2 cut(s) 71, 145
FaiI YATR 7 cut(s) 46, 53, 69, 84, 143, 181, 183
FaqI GGGAC 2 cut(s) 122, 173
FatI CATG 2 cut(s) 67, 141
FauI CCCGC 1 cut(s) 130
FokI GGATG 3 cut(s) 251, 279, 331
FspBI CTAG 2 cut(s) 15, 358
GsaI CCCAGC 3 cut(s) 101, 172, 352
GsuI CTGGAG 1 cut(s) 279
Hin1II CATG 2 cut(s) 71, 145
HphI GGTGA 1 cut(s) 352
Hpy188I TCNGA 2 cut(s) 252, 337
HpyAV CCTTC 1 cut(s) 247
HpyCH4III ACNGT 2 cut(s) 248, 296
HpyCH4IV ACGT 1 cut(s) 196
HpyF3I CTNAG 3 cut(s) 149, 334, 353
HpySE526I ACGT 1 cut(s) 196
Hsp92II CATG 2 cut(s) 71, 145
Kzo9I GATC 3 cut(s) 48, 93, 211
LpnPI CCDG 6 cut(s) 11, 111, 111, 126, 154, 243
MaeI CTAG 2 cut(s) 15, 358
MaeII ACGT 1 cut(s) 196
MaeIII GTNAC 2 cut(s) 290, 340
MalI GATC 3 cut(s) 50, 95, 213
MboI GATC 3 cut(s) 48, 93, 211
MflI RGATCY 1 cut(s) 93
MluCI AATT 2 cut(s) 10, 203
MnlI CCTC 3 cut(s) 279, 331, 343
MroXI GAANNNNTTC 1 cut(s) 34
MseI TTAA 1 cut(s) 201
MspA1I CMGCKG 2 cut(s) 125, 352
Mva1269I GAATGC 1 cut(s) 230
NcoI CCATGG 1 cut(s) 141
NdeII GATC 3 cut(s) 48, 93, 211
NlaIII CATG 2 cut(s) 71, 145
NmuCI GTSAC 2 cut(s) 290, 340
PctI GAATGC 1 cut(s) 230
PdmI GAANNNNTTC 1 cut(s) 34
PshAI GACNNNNGTC 1 cut(s) 246
PspFI CCCAGC 3 cut(s) 97, 168, 348
PspPI GGNCC 2 cut(s) 110, 317
PsuI RGATCY 1 cut(s) 93
PvuII CAGCTG 1 cut(s) 352
RsaI GTAC 1 cut(s) 298
RsaNI GTAC 1 cut(s) 297
SaqAI TTAA 1 cut(s) 201
Sau3AI GATC 3 cut(s) 48, 93, 211
Sau96I GGNCC 2 cut(s) 110, 317
SetI ASST 9 cut(s) 36, 155, 170, 199, 290, 319, 342, 354, 359
SinI GGWCC 2 cut(s) 110, 317
Sse9I AATT 2 cut(s) 10, 203
SsiI CCGC 1 cut(s) 123
SspMI CTAG 2 cut(s) 15, 358
StyI CCWWGG 1 cut(s) 141
TaaI ACNGT 2 cut(s) 248, 296
TaiI ACGT 1 cut(s) 199
TaqI TCGA 1 cut(s) 214
TasI AATT 2 cut(s) 10, 203
TatI WGTACW 1 cut(s) 296
Tru1I TTAA 1 cut(s) 201
Tru9I TTAA 1 cut(s) 201
TseFI GTSAC 2 cut(s) 290, 340
Tsp45I GTSAC 2 cut(s) 290, 340
TspDTI ATGAA 3 cut(s) 23, 99, 201
VpaK11BI GGWCC 2 cut(s) 110, 317
XapI RAATTY 1 cut(s) 10
XcmI CCANNNNNNNNNTGG 1 cut(s) 85
XmnI GAANNNNTTC 1 cut(s) 34
XspI CTAG 2 cut(s) 15, 358
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.